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MCL coexpression mm9:3680: Difference between revisions

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|gostat_on_MCL_coexpression=GO:0005247;voltage-gated chloride channel activity;0.0413509070568605;12725!GO:0022844;voltage-gated anion channel activity;0.0413509070568605;12725!GO:0016567;protein ubiquitination;0.0413509070568605;71538!GO:0000151;ubiquitin ligase complex;0.0413509070568605;71538!GO:0032446;protein modification by small protein conjugation;0.0413509070568605;71538!GO:0043168;anion binding;0.0413509070568605;12725!GO:0031404;chloride ion binding;0.0413509070568605;12725!GO:0005254;chloride channel activity;0.0413509070568605;12725!GO:0006821;chloride transport;0.0413509070568605;12725!GO:0005253;anion channel activity;0.0413509070568605;12725!
|gostat_on_MCL_coexpression=GO:0005247;voltage-gated chloride channel activity;0.0413509070568605;12725!GO:0022844;voltage-gated anion channel activity;0.0413509070568605;12725!GO:0016567;protein ubiquitination;0.0413509070568605;71538!GO:0000151;ubiquitin ligase complex;0.0413509070568605;71538!GO:0032446;protein modification by small protein conjugation;0.0413509070568605;71538!GO:0043168;anion binding;0.0413509070568605;12725!GO:0031404;chloride ion binding;0.0413509070568605;12725!GO:0005254;chloride channel activity;0.0413509070568605;12725!GO:0006821;chloride transport;0.0413509070568605;12725!GO:0005253;anion channel activity;0.0413509070568605;12725!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0004111!1.00e-09!122;UBERON:0000025!7.09e-09!114;UBERON:0011216!1.03e-08!194;UBERON:0000073!1.07e-08!54;UBERON:0002365!1.95e-08!25;UBERON:0002330!1.95e-08!25;UBERON:0001049!9.47e-08!52;UBERON:0005068!9.47e-08!52;UBERON:0006241!9.47e-08!52;UBERON:0007135!9.47e-08!52;UBERON:0002107!1.18e-07!22;UBERON:0007499!1.18e-07!22;UBERON:0006925!1.18e-07!22;UBERON:0009497!1.18e-07!22;UBERON:0000015!1.18e-07!22;UBERON:0002423!1.18e-07!22;UBERON:0006235!1.18e-07!22;UBERON:0008835!1.18e-07!22;UBERON:0003894!1.18e-07!22;UBERON:0004161!1.18e-07!22;UBERON:0008836!1.18e-07!22;UBERON:0007023!1.30e-07!51;UBERON:0002020!1.71e-07!34;UBERON:0001017!1.98e-07!73;UBERON:0009854!2.20e-07!23;UBERON:0009856!2.20e-07!23;UBERON:0002021!6.32e-07!10;UBERON:0000411!6.32e-07!10;UBERON:0001950!6.32e-07!10
}}
}}

Revision as of 20:27, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr8:63462012..63462116,-p1@Clcn3
Mm9::chr9:77956395..77956423,-p2@Fbxo9
Mm9::chr9:77956424..77956457,-p1@Fbxo9


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0005247voltage-gated chloride channel activity0.0413509070568605
GO:0022844voltage-gated anion channel activity0.0413509070568605
GO:0016567protein ubiquitination0.0413509070568605
GO:0000151ubiquitin ligase complex0.0413509070568605
GO:0032446protein modification by small protein conjugation0.0413509070568605
GO:0043168anion binding0.0413509070568605
GO:0031404chloride ion binding0.0413509070568605
GO:0005254chloride channel activity0.0413509070568605
GO:0006821chloride transport0.0413509070568605
GO:0005253anion channel activity0.0413509070568605



Relative expression of the co-expression cluster over median <br>Analyst:




Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
anatomical conduit1.00e-09122
tube7.09e-09114
organ system subdivision1.03e-08194
regional part of nervous system1.07e-0854
exocrine gland1.95e-0825
exocrine system1.95e-0825
neural tube9.47e-0852
neural rod9.47e-0852
future spinal cord9.47e-0852
neural keel9.47e-0852
liver1.18e-0722
epithelial sac1.18e-0722
digestive gland1.18e-0722
epithelium of foregut-midgut junction1.18e-0722
anatomical boundary1.18e-0722
hepatobiliary system1.18e-0722
foregut-midgut junction1.18e-0722
hepatic diverticulum1.18e-0722
liver primordium1.18e-0722
septum transversum1.18e-0722
liver bud1.18e-0722
adult organism1.30e-0751
gray matter1.71e-0734
central nervous system1.98e-0773
digestive tract diverticulum2.20e-0723
sac2.20e-0723
occipital lobe6.32e-0710
visual cortex6.32e-0710
neocortex6.32e-0710


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs




JASPAR motifs


Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}

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